ICEberg
I. Information of ICE
ICEberg ID16
Name ICEVchBan9 This ICE is derived from experimental literature
FamilySXT/R391
OrganismVibrio cholerae MJ-1236
Size (bp)107703
GC content [Genome] (%)36.4
Insertion siteprfC (VCD_003660)
FunctionAntibiotic resistance genes: floR, strBA, sul2, dfrA1, tetA; glyoxoylase abx resistance
Species that ICE can be transferred to-
Nucleotide SequenceCP001485 (complete ICE sequence in this genome)
Replicon chromosome 1 (3149584 bp, BioProject:33555) [NC_012668]
Genome coordinates2958347..3066049 
Putative oriT region -
Putative relaxase coordinates: 3016293..3018443; Locus tag: VCD_003714;  Family:  MOBH


II. ICE interaction with IME/CIME/

The interaction information of ICEVchBan9 is not available.



The graph information of ICEVchBan9 components from CP001485
Complete gene list of ICEVchBan9 from CP001485
#Gene Coordinates [+/-], size (bp) Product 
(GenBank annotation)
*Reannotation 
1VCD_0036572954522..2955799 [-], 1278branched-chain amino acid transport system carrier protein
2VCD_0036582956144..2956866 [+], 723predicted O-methyltransferase
3VCD_0036592956954..2958225 [+], 1272ATP-dependent RNA helicase SrmB
4VCD_0036602958347..2959936 [-], 1590peptide chain release factor 3
5VCD_0036612960193..2960840 [-], 648HTH-type transcriptional regulator for conjugative element SXT
6VCD_0036622960958..2961209 [+], 252uncharacterized protein conserved in bacteria prophage-related
7VCD_0036632961265..2962134 [+], 870hypothetical protein
8VCD_0036642962055..2962783 [+], 729hypothetical protein
9VCD_0036652962770..2963318 [+], 549soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains)Orf169_F, T4SS component 
10VCD_0036662963315..2963614 [+], 300hypothetical protein
11VCD_0036672964666..2968235 [-], 3570IncF plasmid conjugative transfer protein TraGTraG_F, T4SS component 
12VCD_0036682968239..2969627 [-], 1389IncF plasmid conjugative transfer pilus assembly protein TraHTraH_F, T4SS component 
13VCD_0036692969630..2970574 [-], 945IncF plasmid conjugative transfer pilus assembly protein TraFTraF_F, T4SS component 
14VCD_0036702970831..2971790 [-], 960integron integraseIntegrase 
15VCD_0036712972078..2972551 [+], 474dihydrofolate reductaseAR 
16VCD_0036722973754..2974122 [+], 369hypothetical protein
17VCD_0036732974222..2974923 [+], 702hypothetical protein
18VCD_0036742975596..2976303 [-], 708hypothetical protein
19VCD_0036752976393..2977466 [-], 1074hypothetical protein
20VCD_0036762977557..2977898 [-], 342hypothetical protein
21VCD_0036772977898..2978395 [-], 498DNA repair protein RadC
22VCD_0036782978480..2980135 [-], 1656hypothetical protein
23VCD_0036792980205..2980645 [-], 441hypothetical protein
24VCD_0036802980707..2981660 [-], 954cobalamine biosynthesis protein
25VCD_0036812981759..2982529 [-], 771hypothetical protein
26VCD_0036822982526..2983602 [-], 1077ATPase associated with various cellular activities AAA_5
27VCD_0036832983695..2984711 [-], 1017DNA recombination protein
28VCD_0036842984772..2984915 [-], 144hypothetical protein
29VCD_0036852984997..2985815 [-], 819hypothetical protein
30VCD_0036862985895..2986314 [-], 420single-stranded DNA-binding protein
31VCD_0036872986330..2986668 [-], 339hypothetical protein
32VCD_0036882987024..2987626 [+], 603hypothetical protein
33VCD_0036892987717..2988379 [-], 663hypothetical protein
34VCD_0036902988410..2988883 [-], 474hypothetical protein
35VCD_0036912988974..2992615 [-], 3642IncF plasmid conjugative transfer protein TraNTraN_F, T4SS component 
36VCD_0036922992669..2993703 [-], 1035IncF plasmid conjugative transfer pilus assembly protein TraUTraU_F, T4SS component 
37VCD_0036932993681..2994844 [-], 1164hypothetical proteinTraW_F, T4SS component 
38VCD_0036942994816..2995328 [-], 513signal peptidase I
39VCD_0036952995312..2995659 [-], 348hypothetical protein
40VCD_0036962995652..2998069 [-], 2418IncF plasmid conjugative transfer pilus assembly protein TraCTraC_F, T4SS component 
41VCD_0036972998051..2998743 [-], 693thiol:disulfide interchange protein DsbCTrbB_I, T4SS component 
42VCD_0036982998888..3000333 [-], 1446type 4 fimbriae expression regulatory protein pilR
43VCD_0036993000336..3001871 [-], 1536hypothetical protein
44VCD_0037003001881..3002990 [-], 1110hypothetical protein
45VCD_0037013002987..3005716 [-], 2730hypothetical protein
46VCD_0037023006281..3007231 [-], 951Ync
47VCD_0037033007212..3008045 [-], 834Ynd
48VCD_0037043008223..3008609 [-], 387TraATraA_F, T4SS component 
49VCD_0037053008606..3009256 [-], 651conjugative transfer protein TraVTraV_F, T4SS component 
50VCD_0037063009253..3010545 [-], 1293IncF plasmid conjugative transfer pilus assembly protein TraBTraB_F, T4SS component 
51VCD_0037073010542..3011444 [-], 903IncF plasmid conjugative transfer pilus assembly protein TraKTraK_F, T4SS component 
52VCD_0037083011425..3012051 [-], 627hypothetical proteinTraE_F, T4SS component 
53VCD_0037093012048..3012335 [-], 288IncF plasmid conjugative transfer pilus assembly protein TraLTraL_F, T4SS component 
54VCD_0037103012585..3013205 [+], 621hypothetical protein
55VCD_0037113013232..3013876 [-], 645conjugative transfer protein s043
56VCD_0037123013854..3014390 [-], 537hypothetical protein
57VCD_0037133014424..3016244 [-], 1821TraDTraD_F, T4SS component 
58VCD_0037143016293..3018443 [-], 2151TraIRelaxase, MOBH Family
59VCD_0037153018598..3021249 [-], 2652hypothetical protein
60VCD_0037163021293..3023368 [-], 2076hypothetical protein
61VCD_0037173023385..3026042 [-], 2658hypothetical protein
62VCD_0037183026042..3029668 [-], 3627hypothetical protein
63VCD_0037193029684..3031447 [-], 1764hypothetical protein
64VCD_0037203031464..3035141 [-], 3678hypothetical protein
65VCD_0037213035160..3035753 [-], 594hypothetical protein
66VCD_0037223035741..3036340 [-], 600hypothetical protein
67VCD_0037233036350..3037276 [-], 927hypothetical protein
68VCD_0037243037345..3037659 [-], 315hypothetical protein
69VCD_0037253037747..3038652 [-], 906DNA polymerase III epsilon subunit-like 3'-5' exonuclease
70VCD_0037263039291..3039740 [+], 450error-prone repair protein UmuD
71VCD_0037273039709..3040017 [+], 309error-prone repair protein UmuC
72VCD_0037283040602..3041801 [-], 1200transposase
73VCD_0037293041840..3041947 [+], 108hypothetical protein
74VCD_0037303042446..3043261 [+], 816dihydropteroate synthaseAR 
75VCD_0037313043322..3044125 [+], 804aminoglycoside 3'-phosphotransferaseAR 
76VCD_0037323044116..3044961 [+], 846aminoglycoside/hydroxyurea antibiotic resistance kinaseAR 
77VCD_0037333045239..3045385 [+], 147hypothetical protein
78VCD_0037343045633..3046655 [-], 1023cobalt-zinc-cadmium resistance protein czcD
79VCD_0037353046790..3047173 [-], 384hypothetical protein
80VCD_0037363047352..3047546 [+], 195StrA aminoglycoside phosphotransferase
81VCD_0037373047684..3048361 [-], 678tetracycline repressor protein
82VCD_0037383048365..3049639 [+], 1275TetAAR 
83VCD_0037393049891..3050196 [-], 306transcriptional regulator LysR family
84VCD_0037403050224..3051438 [-], 1215florfenicol/chloramphenicol resistance proteinAR 
85VCD_0037413051655..3052539 [-], 885hypothetical protein
86VCD_0037423052570..3054063 [-], 1494IS phage Tn transposon-related protein
87VCD_0037433054481..3056619 [-], 2139transposase Tn3 family protein
88VCD_0037443057324..3057431 [+], 108hypothetical protein
89VCD_0037453058519..3059622 [+], 1104error-prone repair protein UmuC
90VCD_0037463059633..3060076 [-], 444hypothetical protein
91VCD_0037473060099..3060233 [-], 135hypothetical protein
92VCD_0037483060541..3061515 [+], 975Rod shape determination protein
93VCD_0037493061512..3061787 [+], 276hypothetical protein
94VCD_0037503061789..3063030 [+], 1242phage Integrase
95VCD_0037513063160..3065178 [-], 2019hypothetical protein
96VCD_0037523065951..3066049 [-], 99hypothetical protein
97VCD_0037533066253..3068310 [+], 2058C-di-GMP phosphodiesterase A-related protein
98VCD_0037543068299..3068772 [-], 474ribosomal-protein-S18p-alanine acetyltransferase
99VCD_0037553068745..3069152 [-], 408DNA polymerase III psi subunit
100VCD_0037563069263..3069814 [-], 552acetyltransferase
101VCD_0037573069750..3070181 [-], 432hypothetical protein
 
flank Flanking regions
integrase Gene may contribute to site-specific recombination
conjugation Gene may play role in conjugative transfer
virulence  Gene may be involved in adaptative function

ElementNo. of sequencesDownload
Nucleotide sequences1Fasta
Proteins93Fasta
(1) Palmieri C; Magi G; Creti R; Baldassarri L; Imperi M; Gherardi G; Facinelli B (2012). Interspecies mobilization of an erm(T)-carrying plasmid of Streptococcus dysgalactiae subsp. equisimilis by a coresident ICE of the ICESa2603 family. J Antimicrob Chemother. . [PudMed:22949621] experimental
(2) Spagnoletti M; Ceccarelli D; Colombo MM (2012). Rapid detection by multiplex PCR of Genomic Islands, prophages and Integrative Conjugative Elements in V. cholerae 7th pandemic variants. J Microbiol Methods. 88(1):98-102. [PudMed:22062086] experimental
(3) Wozniak RA; Fouts DE; Spagnoletti M; Colombo MM; Ceccarelli D; Garriss G; Dery C; Burrus V; Waldor MK (2009). Comparative ICE genomics: insights into the evolution of the SXT/R391 family of ICEs. PLoS Genet. 5(12):e1000786. [PudMed:20041216] in_silico
 
experimental experimental literature
in_silico in silico analysis literature